Introduction

The geomorph function plotspec can be used to plot a 3D mesh of a specimen with an overlay of that specimen’s landmarks.

plotspec()
  • \(spec\): An object of class shape3d/mesh3d
  • \(digitspec\): Data matrix containing 3D fixed and/or surface sliding coordinates.
  • \(fixed\): The number of fixed template landmarks (see help files for digitspec function)
  • \(fixed.pt.col\): The color for plotting fixed template landmarks (if any)
  • \(fixed.pt.size\): Number representing the size for plotting fixed template landmarks (if any)
  • \(mesh.ptsize\): Numeric Size to plot the mesh points (vertices), e.g. 0.1 for dense meshes, 3 for sparse meshes
  • \(centered\):
    Logical Whether the data matrix is in the surface mesh coordinate system (centered = FALSE) or if the data were collected after the mesh was centered (centered = TRUE)- see details.



plotspec(spec = mesh, digitspec = lmks, fixed = 16, centered = T)



The color of landmark points will default to red, but can be changed:

plotspec(spec = mesh, digitspec = lmks, fixed = 16, centered = T, fixed.pt.col = "blue")